Avery in Boulder is awesome - upstairs is restaurant and beer, downstairs is beer but you can also get food. 2 separate areas. Possibly the best brewery in the state except hoppy beers not outstanding.
Mountain Sun is a good place for food and beers, in Boulder, and I think they have 3 locations.
Nearby there is Powder Keg in Niwot.
Left Hand and Tasty Weasel (Oskar Blues) are within 5 minutes of each other in Longmont.
Odd13 in Lafayette is a must-see if you like hoppy beers
4 Noses is close to that and is very good- I think it's in Broomfield.
In Denver Proper, I love Great Divide, Epic, and Crooked Stave (if you like sours!). Also Mockery, Station 26 (hoppy beers!), TRVE is a metal themed brewery. Comrade is also very good, focus is on hoppy. Former Future, Strange Craft also worth a visit.
In Fort Collins besides New Belgium and Odells, there is Funkwerks (Belgian styles), and Horse and Dragon. Black Bottle is a sleeper hit, and Equinox is doing great things. I would skip Fort Collins Brewing.
Loveland: Grimm Brothers is good, mostly German-style. Loveland Ale Works and Big Beaver are also worth the visit. Verboten is quite good as well.
It's a drive, but Weldwerks in Greely is doing great things. Wiley Roots is nearby and also good.